Contaminants of emerging concern (CECs) are defined as those for which there are "...limited data on occurrence, environmental fate, and toxicity". CECs include PFAS compounds (per- and polyfluoroalkyl substances), pharmaceuticals, phthalates, personal care products (PCPs), UV filters, flame retardants, and other substances. All of these contaminants are known to be toxic and some potentially carcinogenic and are this a major concern when they enter the marine environment. Preliminary studies of PFAS in Florida estuaries indicate elevated and problematic concentrations in sediments, surface waters and biota on both coasts. In this study we adapt existing food web models (Ecopath/Ecospace/Ecosim with TRACER) to assess availability, uptake, bioaccumulation and potential for biomagnification of CECs with emphasis on species used for recreational and subsistence consumption. We also develop models specifically to calculate mass balances of inputs and existing stocks of contaminants, focusing on PFAS. How do CECs enter the estuarine environment? Likely sources include non-point source land-based runoff, wastewater treatment outfalls, groundwater intrusion and atmospheric deposition. Sinks include estuarine sediments, biota and exit of CECs in waters flushed from estuaries. Based on empirical studies and hydrodynamic modeling conducted in Tampa bay and elsewhere from relevant literature we parameterize food web-based models including multiple trophic levels of biological components and human consumption of CEC-tainted seafoods. Results of modeling studies highlight where additional empirical studies are required to generate additional data to further constrain model predictions. Further, we highlight spatial patterns of contaminant dynamics and correlate simulations with empirically derived patterns.